Atomistry » Zinc » PDB 1nvd-1ohl » 1occ
Atomistry »
  Zinc »
    PDB 1nvd-1ohl »
      1occ »

Zinc in PDB 1occ: Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State

Enzymatic activity of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State

All present enzymatic activity of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State:
1.9.3.1;

Protein crystallography data

The structure of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State, PDB code: 1occ was solved by T.Tsukihara, H.Aoyama, E.Yamashita, T.Tomizaki, H.Yamaguchi, K.Shinzawa-Itoh, R.Nakashima, R.Yaono, S.Yoshikawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 189.100, 210.500, 178.600, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 25.2

Other elements in 1occ:

The structure of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Iron (Fe) 4 atoms
Copper (Cu) 6 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State (pdb code 1occ). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State, PDB code: 1occ:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1occ

Go back to Zinc Binding Sites List in 1occ
Zinc binding site 1 out of 2 in the Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn99

b:19.2
occ:1.00
SG F:CYS60 2.4 16.4 1.0
SG F:CYS82 2.5 17.6 1.0
SG F:CYS85 2.5 21.5 1.0
SG F:CYS62 2.5 23.4 1.0
CB F:CYS82 3.0 18.1 1.0
CB F:CYS60 3.1 17.9 1.0
CB F:CYS62 3.7 19.6 1.0
OG F:SER84 3.7 50.5 1.0
CA F:CYS62 3.8 19.5 1.0
CB F:CYS85 3.9 11.6 1.0
N F:CYS62 4.0 16.2 1.0
N F:CYS85 4.2 26.3 1.0
O F:CYS60 4.2 24.4 1.0
C F:CYS60 4.3 17.1 1.0
CA F:CYS60 4.3 14.0 1.0
OG1 F:THR87 4.5 19.6 1.0
CA F:CYS82 4.5 13.5 1.0
CA F:CYS85 4.5 23.6 1.0
CB F:THR87 4.8 15.2 1.0
C F:ILE61 4.9 19.0 1.0
C F:SER84 4.9 27.1 1.0
C F:CYS82 5.0 13.3 1.0

Zinc binding site 2 out of 2 in 1occ

Go back to Zinc Binding Sites List in 1occ
Zinc binding site 2 out of 2 in the Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Zn99

b:19.2
occ:1.00
SG S:CYS60 2.4 16.4 1.0
SG S:CYS82 2.5 17.6 1.0
SG S:CYS85 2.5 21.5 1.0
SG S:CYS62 2.5 23.4 1.0
CB S:CYS82 3.0 18.1 1.0
CB S:CYS60 3.1 17.9 1.0
CB S:CYS62 3.7 19.6 1.0
OG S:SER84 3.7 50.5 1.0
CA S:CYS62 3.8 19.5 1.0
CB S:CYS85 3.9 11.6 1.0
N S:CYS62 4.0 16.2 1.0
N S:CYS85 4.2 26.3 1.0
O S:CYS60 4.2 24.4 1.0
C S:CYS60 4.3 17.1 1.0
CA S:CYS60 4.3 14.0 1.0
OG1 S:THR87 4.5 19.6 1.0
CA S:CYS82 4.5 13.5 1.0
CA S:CYS85 4.5 23.6 1.0
CB S:THR87 4.8 15.2 1.0
C S:ILE61 4.9 19.0 1.0
C S:SER84 4.9 27.1 1.0
C S:CYS82 5.0 13.3 1.0

Reference:

T.Tsukihara, H.Aoyama, E.Yamashita, T.Tomizaki, H.Yamaguchi, K.Shinzawa-Itoh, R.Nakashima, R.Yaono, S.Yoshikawa. The Whole Structure of the 13-Subunit Oxidized Cytochrome C Oxidase at 2.8 A. Science V. 272 1136 1996.
ISSN: ISSN 0036-8075
PubMed: 8638158
Page generated: Mon Jan 25 16:11:03 2021

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy